GgaINT0081358 @ galGal4
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
calpain 8 [Source:HGNC Symbol;Acc:HGNC:1485]
Coordinates
chr3:17066119-17066935:+
Coord C1 exon
chr3:17066119-17066330
Coord A exon
chr3:17066331-17066898
Coord C2 exon
chr3:17066899-17066935
Length
568 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TTTGTTTTTGTTTTTCTTAGGAT
3' ss Score
11.18
Exon sequences
Seq C1 exon
CTGGAAAATAACAAAGACATTCATCTGAACCGTGCTTTCTTCACAAGGAACCAACCAGTAGCCCGGTCTGAGACTTACATCAACCTGCGTGAAGTCTCCAGCCGCATTAAATTGCCCAAAGGAGAGTACCTCATTGTGCCATCCACATTTGAGCCTTACAAAAATGGAGAGTTCTGCCTTCGAGTTTTTTCTGAGAAAAAGGTTAAAACTCA
Seq A exon
GTGAGTATCTTCTATGTAAAGCTTTCTCTTCTGCTGATGAGACCCATAAAATTAAAGGTCTGTGCTCTATCTACCAGCAATCTATCAGCAAAATAGGCTGATTTCTAGGGCTTGTTTTCTTTCACAGTCTACTGTATGTGACACACACATCCATGTTACAAAGACATGGCTCTTCAAGTGACCTTTGGCAAGCACTTAGGTGGTAACTAGATCCCTCAGGTCCATGAGATGTAGCAGAAGTTCCCACAATTAAAGACTACAGAGGAAGGTTCTGAAAGTAGAATGGTGGTTTTAAAAATGATTGTATGAACAACAGTCACTGAATGAAAAAACAGGGGTCTGGATTCAAGATAAGAACAACAAGGATGGATTTCCCAAGGAAAATATTGGCAAAATTGGACAGATGGAGGAGGGATGGTGAACATAGGAAACAGGGGACCTAGAGGCTTGTTCTTTAAATTTAGTAAATACTTTGTATTAACAAATTCTGTTATGCTAATGATTTGAAGTGCAAGAAGTACAGTCATAATTTCTGGTTATTTCATTTATTTGTTTTTGTTTTTCTTAG
Seq C2 exon
GATGATTGGTGATACGGTGGCTGCAAAACCATATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAGACATTCATCTGAACCGTGC
R:
CTCATATGGTTTTGCAGCCACC
Band lengths:
238-806
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]